Sequence
atgc intronic sequence ATGC exonic sequencegtacacaatgttgtctctgcttttgattatccttcgcagcagggagcagtgatatgtttttctgtgaaatgatgcctacattgggtcgctgaattccattgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGAAGCGAGCACATCCGTCCTCTTAGCATAGACGACTTCAAATCCGCCCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 26
----------------------------------------------------------gtacacaatgttgtc---tctgcttttgattatccttc----gcagcagggagcagtgatatgtttttctgtgaaatgatgcctacattgggtcgctgaattccattgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGAAGCGAGCACATCCGTCCTCTTAGCATAGACGACTTCAAATCCGCCCATG
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gttggcattgcttgtaccttgctgtcaactgaagacctagataaagtttgttttttgggtttatgctgtctttagatgcactccttattcttctactacaattatactgttaagtgacaacgctttttattttat-atgctaatatggggt---tcgcttcctttctattcagGAGAAAAATGTGGCAAAAGCAGAAGGCAGGCCTGAGCCTGCATTGTATGGTAGTGAGGACATTCGTCCTCTGACCTTAGATGATTTCAAATCTGCCCATGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71763086|gb|DR961023.1|DR961023EST: TGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAG GAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGA
genomic: TGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGA
EST:
gi|67025653|gb|CO454402.1|CO454402EST: TGACCGCAGCGCATTACCC-ATTCGAGAA-TCCTANAGAAG-AAAAGAAA GAGAAGAGTT-GGCTAAA-CAGAAG-TAGGC
genomic: TGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGC
EST:
gi|9794440|gb|BE552748.1|BE552748EST: ACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGATATTTGAAG GAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGG
genomic: ACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGA-A-AAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGG
EST:
gi|71435056|gb|DR816106.1|DR816106EST: TGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAG GAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCGTTGTATGGA
genomic: TGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGA
EST:
gi|16925353|gb|BM078421.1|BM078421EST: TGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAG GAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGA
genomic: TGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGA
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
48 (upstream exon),
48 (downstream exon)
Score:
192AATCTGTGTGTGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGAAGCGAGCACATCCGTCCTCTTAGCATAGACGACTTCAAATCCGCCCATG
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
220AATCTGTGTGTGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGAAGCGAGCACATCCGTCCTCTTAGCATAGACGACTTCAAATCCGCCCATG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
211AATCTGTGTGTGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGAAGCGAGCACATCCGTCCTCTTAGCATAGACGACTTCAAATCCGCCCATG
Block sizes:
48 (upstream exon),
48 (downstream exon)
Score:
223AATCTGTGTGTGACCGCAGCGCATTACCCCATTCGAGAAATCCTAGAGAAGGAAAAGAAGgtacacaatg ... ttgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGAAGCGAGCACATCCGTCCTCTTAGCATAGACGACTTCAAATCCGCCCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtttttctgtgaaatgatgcctacattgggtcgctgaattccattgtgtgcagGAGAAGAGTTTGGCTAAAACAGAAGGTAGGCCAGAGCCCGCATTGTATGGAAGCGAGCACATCCGTCCTCTTAGCATAGACGACTTCAAATCCGCCCATG
ttccatt CT-rich tract
aaatgat TA-rich tract